AU2004286261B2 - Method of designing siRNAs for gene silencing - Google Patents

Method of designing siRNAs for gene silencing Download PDF

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Publication number
AU2004286261B2
AU2004286261B2 AU2004286261A AU2004286261A AU2004286261B2 AU 2004286261 B2 AU2004286261 B2 AU 2004286261B2 AU 2004286261 A AU2004286261 A AU 2004286261A AU 2004286261 A AU2004286261 A AU 2004286261A AU 2004286261 B2 AU2004286261 B2 AU 2004286261B2
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sirna
sequence
sirnas
training
target
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AU2004286261A1 (en
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Steven R. Bartz
Julja Burchard
Guy L. Cavet
Wei Ge
Aimee L. Jackson
Peter S. Linsley
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Merck Sharp and Dohme LLC
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    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
    • C12N15/09—Recombinant DNA-technology
    • C12N15/11—DNA or RNA fragments; Modified forms thereof; Non-coding nucleic acids having a biological activity
    • C12N15/111—General methods applicable to biologically active non-coding nucleic acids
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B20/00—ICT specially adapted for functional genomics or proteomics, e.g. genotype-phenotype associations
    • G16B20/20—Allele or variant detection, e.g. single nucleotide polymorphism [SNP] detection
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B20/00—ICT specially adapted for functional genomics or proteomics, e.g. genotype-phenotype associations
    • G16B20/30—Detection of binding sites or motifs
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B20/00—ICT specially adapted for functional genomics or proteomics, e.g. genotype-phenotype associations
    • G16B20/50—Mutagenesis
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B30/00—ICT specially adapted for sequence analysis involving nucleotides or amino acids
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B30/00—ICT specially adapted for sequence analysis involving nucleotides or amino acids
    • G16B30/10—Sequence alignment; Homology search
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N2310/00—Structure or type of the nucleic acid
    • C12N2310/10—Type of nucleic acid
    • C12N2310/14—Type of nucleic acid interfering N.A.
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N2320/00—Applications; Uses
    • C12N2320/10—Applications; Uses in screening processes
    • C12N2320/11—Applications; Uses in screening processes for the determination of target sites, i.e. of active nucleic acids
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
    • C12N2330/00—Production
    • C12N2330/30—Production chemically synthesised
    • C12N2330/31—Libraries, arrays
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B20/00—ICT specially adapted for functional genomics or proteomics, e.g. genotype-phenotype associations

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  • Life Sciences & Earth Sciences (AREA)
  • Health & Medical Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Physics & Mathematics (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Biotechnology (AREA)
  • Chemical & Material Sciences (AREA)
  • Genetics & Genomics (AREA)
  • Biophysics (AREA)
  • General Health & Medical Sciences (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Evolutionary Biology (AREA)
  • Molecular Biology (AREA)
  • Medical Informatics (AREA)
  • Analytical Chemistry (AREA)
  • Theoretical Computer Science (AREA)
  • Biomedical Technology (AREA)
  • General Engineering & Computer Science (AREA)
  • Wood Science & Technology (AREA)
  • Zoology (AREA)
  • Organic Chemistry (AREA)
  • Plant Pathology (AREA)
  • Microbiology (AREA)
  • Biochemistry (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
AU2004286261A 2003-10-27 2004-10-27 Method of designing siRNAs for gene silencing Active AU2004286261B2 (en)

Applications Claiming Priority (5)

Application Number Priority Date Filing Date Title
US51518003P 2003-10-27 2003-10-27
US60/515,180 2003-10-27
US57231404P 2004-05-17 2004-05-17
US60/572,314 2004-05-17
PCT/US2004/035636 WO2005042708A2 (en) 2003-10-27 2004-10-27 METHOD OF DESIGNING siRNAS FOR GENE SILENCING

Publications (2)

Publication Number Publication Date
AU2004286261A1 AU2004286261A1 (en) 2005-05-12
AU2004286261B2 true AU2004286261B2 (en) 2010-06-24

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AU2004286261A Active AU2004286261B2 (en) 2003-10-27 2004-10-27 Method of designing siRNAs for gene silencing

Country Status (8)

Country Link
US (2) US7962316B2 (ja)
EP (1) EP1692262B1 (ja)
JP (1) JP4790619B2 (ja)
CN (1) CN1926551B (ja)
AU (1) AU2004286261B2 (ja)
CA (1) CA2543954C (ja)
ES (1) ES2687645T3 (ja)
WO (1) WO2005042708A2 (ja)

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US8158677B2 (en) 2007-06-01 2012-04-17 The Trustees Of Princeton University Treatment of viral infections by modulation of host cell metabolic pathways
WO2009042115A2 (en) * 2007-09-24 2009-04-02 Rosetta Inpharmatics Llc Methods of designing short hairpin rnas (shrnas) for gene silencing
US8685937B2 (en) * 2008-08-09 2014-04-01 University Of Iowa Research Foundation Nucleic acid aptamers
US20120072123A1 (en) * 2009-05-29 2012-03-22 Merck & Co., Inc. Methods of Predicting The Probability of Modulation of Transcript Levels By RNAI Compounds
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WO2013043878A2 (en) * 2011-09-20 2013-03-28 The George Washington University Alternative splicing variants of genes associated with prostate cancer risk and survival
CN102643815A (zh) * 2012-03-12 2012-08-22 中国水产科学研究院东海水产研究所 一种抗RNA病毒siRNA分子的设计方法
EP2970976A4 (en) * 2013-03-15 2016-11-02 Techulon Inc ANTISENSE MOLECULES FOR THE TREATMENT OF STAPHYLOCOCCUS AUREUS INFECTIONS
US10137143B1 (en) * 2014-07-30 2018-11-27 The Administrators Of The Tulane Educational Fund Preventing tumor development and metastasis
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CN107109407A (zh) 2014-11-14 2017-08-29 沃雅戈治疗公司 治疗肌萎缩性侧索硬化(als)的组合物和方法
CN107090596B (zh) * 2016-02-18 2020-08-28 中国科学院分子细胞科学卓越创新中心 建立克服基因功能冗余的全基因组功能缺失筛选方法
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CN108182346B (zh) * 2016-12-08 2021-07-30 杭州康万达医药科技有限公司 预测siRNA针对某类细胞的毒性的机器学习模型的建立方法及其应用
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US10597438B2 (en) 2016-12-14 2020-03-24 Janssen Biotech, Inc. PD-L1 binding fibronectin type III domains
JP7104703B2 (ja) 2016-12-14 2022-07-21 ヤンセン バイオテツク，インコーポレーテツド Ｃｄ８ａ結合フィブロネクチンｉｉｉ型ドメイン
SG11201909868YA (en) 2017-05-05 2019-11-28 Voyager Therapeutics Inc Compositions and methods of treating huntington's disease
EP3618839A4 (en) 2017-05-05 2021-06-09 Voyager Therapeutics, Inc. COMPOSITIONS AND TREATMENT METHODS FOR AMYOTROPHIC LATERAL SCLEROSIS (ALS)
AU2018352236A1 (en) 2017-10-16 2020-04-23 The Curators Of The University Of Missouri Treatment of amyotrophic lateral sclerosis (ALS)
WO2019079242A1 (en) 2017-10-16 2019-04-25 Voyager Therapeutics, Inc. TREATMENT OF AMYOTROPHIC LATERAL SCLEROSIS (ALS)
TWI709188B (zh) 2018-09-27 2020-11-01 財團法人工業技術研究院 基於機率融合的分類器、分類方法及分類系統
CN110295171B (zh) * 2019-06-26 2022-07-22 中山大学附属第六医院 用于抑制NPC1基因表达的siRNA的应用
US11628222B2 (en) 2019-10-14 2023-04-18 Aro Biotherapeutics Company CD71 binding fibronectin type III domains
US11781138B2 (en) 2019-10-14 2023-10-10 Aro Biotherapeutics Company FN3 domain-siRNA conjugates and uses thereof
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CN116798513B (zh) * 2023-02-21 2023-12-15 苏州赛赋新药技术服务有限责任公司 筛选siRNA序列以降低脱靶效应的方法及系统
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Also Published As

Publication number Publication date
CA2543954C (en) 2016-11-08
US20110250591A1 (en) 2011-10-13
ES2687645T3 (es) 2018-10-26
CA2543954A1 (en) 2005-05-12
US20080234941A1 (en) 2008-09-25
AU2004286261A1 (en) 2005-05-12
EP1692262A4 (en) 2008-07-09
US8457902B2 (en) 2013-06-04
CN1926551A (zh) 2007-03-07
JP4790619B2 (ja) 2011-10-12
EP1692262A2 (en) 2006-08-23
WO2005042708A3 (en) 2006-10-26
EP1692262B1 (en) 2018-08-15
WO2005042708A2 (en) 2005-05-12
US7962316B2 (en) 2011-06-14
JP2007512808A (ja) 2007-05-24
CN1926551B (zh) 2010-06-16

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